› 1yo5

X-ray diffraction
2Å resolution

Analysis of the 2.0A crystal structure of the protein-DNA complex of human PDEF Ets domain bound to the prostate specific antigen regulatory site

Released:
DOI: 10.2210/pdb1yo5/pdb
PDB entry 1yo5 coloured by chain, front view.
PDB entry 1yo5 coloured by chain, side view.
PDB entry 1yo5 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Analysis of the 2.0 A crystal structure of the protein-DNA complex of the human PDEF Ets domain bound to the prostate specific antigen regulatory site.
Wang Y, Feng L, Said M, Balderman S, Fayazi Z, Liu Y, Ghosh D, Gulick AM
Biochemistry 44 7095-106 (2005)
PMID: 15882048

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114865 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
SAM pointed domain-containing Ets transcription factor Chain: C
Molecule details ›
Chain: C
Length: 97 amino acids
Theoretical weight: 11.59 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O95238 (Residues: 245-335; Coverage: 27%)
Gene names: PDEF, PSE, SPDEF
Sequence domains: Ets-domain
Structure domains: Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
Enhancer site of Prostate Specific Antigen Promoter Region Chain: A
Molecule details ›
Chain: A
Length: 13 nucleotides
Theoretical weight: 4.05 KDa
Source organism: Homo sapiens
Expression system: Not provided
Enhancer site of Prostate Specific Antigen Promoter Region Chain: B
Molecule details ›
Chain: B
Length: 13 nucleotides
Theoretical weight: 3.9 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU
Spacegroup: P21
Unit cell:
a: 36.16Å b: 71.476Å c: 39.136Å
α: 90° β: 113.45° γ: 90°
R-values:
R R work R free
0.205 0.203 0.239
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

Genomic and biochemical insights into the specificity of ETS transcription factors.
Hollenhorst et al. (2011)
4 more

5 mentions without citation

Crystal structure of mouse Elf3 C-terminal DNA-binding domain in complex with type II TGF-beta receptor promoter DNA.
Agarkar et al. (2010)
4 more